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  • golharam
    Member
    • Dec 2009
    • 55
    #1

    Java libaray/API for VCF file

    Hi all,

    Is there a Java library for VCF files as Picard is for SAM/BAM files?

    A quick google search didn't turn anything up.
    Tags: None
    • nilshomer
      Nils Homer
      • Nov 2008
      • 1283
      #2
      Originally posted by golharam View Post
      Hi all,

      Is there a Java library for VCF files as Picard is for SAM/BAM files?

      A quick google search didn't turn anything up.
      VCF Links
      http://vcftools.sourceforge.net/links.html

        Comment

        • golharam
          Member
          • Dec 2009
          • 55
          #3
          Unfortunately they are all not Java. GATK is Java, but GATK has some complexities I'm trying to avoid. I'm actually building a version similar to Picard, or at least shares the same infrastructure.

            Comment

            • nilshomer
              Nils Homer
              • Nov 2008
              • 1283
              #4
              Perhaps you could talk to the Picard developers to see if they would want to add this support?

                Comment

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